New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	= 3234647	20 (0.840)	3 (0.140)	3/256	3.0	10.7%	noncoding (10/86 nt)	REP233 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP233 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913_3_hsa_tpiA	4325943 =	32 (1.500)					noncoding (160/583 nt)	REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences	REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences
Rejected: Frequency below/above cutoff threshold.

GCGAGCGTCGCATCAGGCAGTCGGCACTGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGATGGTGCGGGAATTTGTAGGC  >  NC_000913_3_hsa_tpiA/4325802‑4326089                                                                                                                                              |                                                                                                                                                   gcgAGCGGCGCATCAGGCAGGCGGCACNGTTGNCGGATGCGGCGTAAACGCCGTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAAc                                                                                                                                             <  1:26365/149‑1 (MQ=255)   gAGCGTCGCATCAGGCAGTCGGCACTGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGc                                                                                                                                           <  1:65813/149‑1 (MQ=35)       gtggCATCAGGGAGTGGGCACTGTTGCCGGGTGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTa                                                                                                                                       <  2:95417/146‑1 (MQ=255)        tCGCATCAGGCAGTCGGCACTGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTAt                                                                                                                                      >  2:76840/1‑149 (MQ=35)             tCAGGCAGTCGGCACTGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGc                                                                                                                                 <  1:374048/149‑1 (MQ=35)                      cGGCACTGCTGCCGGATGCGCCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGTATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAgg                                                                                                                        <  1:246473/149‑1 (MQ=12)                            tGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATCTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCgg                                                                                                                  >  1:274088/1‑149 (MQ=17)                                                aCGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCCTGAACGCCTTATTCGGCCTCCGGAGGGTCCCGGAGTTTGTAGCCCtcgtagg                                                                                              >  2:78195/1‑143 (MQ=11)                                                 cGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGa                                                                                             >  1:270212/1‑149 (MQ=32)                                                   ccTTATCCGGCCTACGGAGGGTGCGGGAATTTGGAGGCCTGATAAGACGCGCGAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGAcg                                                                                           <  2:16643/149‑1 (MQ=17)                                                        tCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTACACGCCTTATCCGGCCTACGGAGGGGGGGGGCGTTTGTAGTCCTGCTAGGACGCCCac                                                                                      >  2:385623/1‑148 (MQ=11)                                                        tCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATACGGAGTAAACACCGTATCCGGCCGACCGGAGGAGCGGGAAGTTGTAGACCTGATACGACGCGCaa                                                                                      >  2:318959/1‑149 (MQ=11)                                                              cTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGCAACCGCCTTATCCGGCCTCCGGAACACGCGAGAATCAGTCGGCTTGATCAAACGCGCATGccgcg                                                                                >  2:187808/1‑145 (MQ=11)                                                               tACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGc                                                                               <  2:294096/149‑1 (MQ=32)                                                                  ggAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATc                                                                            <  1:269471/149‑1 (MQ=32)                                                                   gAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCa                                                                           <  1:55422/149‑1 (MQ=32)                                                                       gTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATCAAACGCGCAAGCGTGGCCTCAGGCa                                                                       >  1:109757/1‑149 (MQ=255)                                                                            ggAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCgg                                                                  >  2:258436/1‑149 (MQ=37)                                                                                   agggattttttgttttatggaagcgcgattccagaactgggcagacattgccggatgcgGCGTAAACGCCTTATCCg                                                                                                                                   >  1:18762‑M2/60‑77 (MQ=255)                                                                                   agggattttttgttttatggaagcgcgattccagaactgggcagacattgccggatgcgGCGTAAACGCCTTATCCg                                                                                                                                   <  2:18762‑M2/18‑1 (MQ=255)                                                                                     aGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGc                                                         <  2:334836/149‑1 (MQ=38)                                                                                       gCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCg                                                       <  1:76840/149‑1 (MQ=38)                                                                                           gATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATg                                                   >  1:59277/1‑149 (MQ=37)                                                                                             taggACGCGCAAGCGTCTCATCACGCAGCCGGCACCCTTGCCGGATGCGGCGTAAACGTCTTATCCGGCCTACGCAGGGCGCGTGAATTTGTAGGCCTGATAAGACGCGCAACCTTCCCATCAGGCTCTCGGCACCGTTGCCGGATgcg                                                 <  2:177454/146‑1 (MQ=11)                                                                                              aaGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATgcgg                                                <  1:1131/149‑1 (MQ=39)                                                                                                gACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGAt                                                                                                 >  1:376500/1‑98 (MQ=34)                                                                                                gACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATgcggcg                                              >  1:53602/1‑149 (MQ=39)                                                                                                 aCGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAAt                                                                                                              >  2:104689/1‑84 (MQ=33)                                                                                                            tCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATGCGGCGCACACGCCttct                                  >  2:13037/1‑147 (MQ=255)                                                                                                                   aGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCt                           >  2:318434/1‑149 (MQ=37)                                                                                                                     gCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTAc                         <  2:59277/149‑1 (MQ=37)                                                                                                                       aGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATACGGCCTACGGAGGGGGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATGCGGCGCAAACGCCTTATCCGGCCTACgg                       >  2:16261/1‑149 (MQ=255)                                                                                                                             cACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATgcggc                                               <  1:146493/119‑1 (MQ=34)                                                                                                                             cACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATgcggc                                               >  2:146493/1‑119 (MQ=34)                                                                                                                               acattgccggatgcgGCGTAAACGCCTTATCCGGCTTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGATGGTGCg               <  1:366184‑M2/134‑1 (MQ=255)                                                                                                                                    gccggatgcgGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAg                                                                      >  2:44189‑M2/11‑89 (MQ=255)                                                                                                                                        gatgcgGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATaa                                                                                               <  2:223307‑M2/54‑1 (MQ=255)                                                                                                                                        gatgcgGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATaa                                                                                               >  1:223307‑M2/7‑60 (MQ=255)                                                                                                                                         atgcgGCGTAAACGCCTTACCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGATGGTGCGGGAATTTGTa     <  1:40200‑M2/144‑1 (MQ=255)                                                                                                                                          tgcgGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACCGATGGCGCGGGAATCTGTAg    >  2:148351‑M2/5‑149 (MQ=255)                                                                                                                                            cgGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGATGGTGCGGGAATTTGTAGGc  <  2:270212‑M2/147‑1 (MQ=255)                                                                                                                                             gGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAAtt                                                                                                             >  2:249208‑M2/2‑41 (MQ=255)                                                                                                                                             gGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAAtt                                                                                                             <  1:249208‑M2/40‑1 (MQ=255)                                                                                                                                              |                                                                                                                                                   GCGAGCGTCGCATCAGGCAGTCGGCACTGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCATTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGAGGGTGCGGGAATTTGTAGGCCTGATAAGACGCGCAAGCGTCGCATCAGGCAGTCGGCACCGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGATGGTGCGGGAATTTGTAGGC  >  NC_000913_3_hsa_tpiA/4325802‑4326089

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.